Locus 4915

Sequence ID 3L_DroMel_CAF1
Location 13,668,877 – 13,668,981
Length 104
Max. P 0.998183
window7758 window7759

overview

Window 8

Location 13,668,877 – 13,668,981
Length 104
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.92
Mean single sequence MFE -46.45
Consensus MFE -44.76
Energy contribution -44.82
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -4.03
Structure conservation index 0.96
SVM decision value 3.03
SVM RNA-class probability 0.998183
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13668877 104 + 23771897
--------CUCUCGAGUGGCAACGGCACGCAGGAUCUAAUGUGUCCUGGGUAAUUGACUCGACACAAGAUUCUGCAUUGUUGUCACGCCCUCCCCCAGUCUGUG--------UGACUGGG
--------.....(((.(((.((((((.(((((((((..((((((..((((.....)))))))))))))))))))..))))))...)))))).(((((((....--------.))))))) ( -47.40)
>DroSec_CAF1 76270 104 + 1
--------CUCUCGAGUGGCAACGGCACGCAGGAUCUAAUGUGUCCUGGGUAAUUGACUCGACACAAGAUUCUGCAUUGUUGUCACGCCCUCCCCCAGUCUGUG--------UGACUGGG
--------.....(((.(((.((((((.(((((((((..((((((..((((.....)))))))))))))))))))..))))))...)))))).(((((((....--------.))))))) ( -47.40)
>DroEre_CAF1 81435 112 + 1
ACUACCGACUCUCGAGUGGCAACGGCACGCAGGAUCUAAUGUGUCCUGGGUAAUUGACUCGACACAAGAUUCUGCAUUGUUGUCACGCCCUUCCCCGGUCUGUG--------UGACUGGG
.....((.....)).((((((((((...(((((((((..((((((..((((.....))))))))))))))))))).)))))))))).......(((((((....--------.))))))) ( -46.80)
>DroYak_CAF1 84697 112 + 1
--------CUCUCGAGUGGCAACGGCACGCAGGAUCUAAUGUGUCCUGGGUAAUUGACUCGACACAAGAUUCUGCAUUGUUGUCACGCCCUUCCCCAGUCUAUGUGACUAUGUGACUGGU
--------.......((((((((((...(((((((((..((((((..((((.....))))))))))))))))))).))))))))))........((((((((((....)))).)))))). ( -44.20)
>consensus
________CUCUCGAGUGGCAACGGCACGCAGGAUCUAAUGUGUCCUGGGUAAUUGACUCGACACAAGAUUCUGCAUUGUUGUCACGCCCUCCCCCAGUCUGUG________UGACUGGG
...............((((((((((...(((((((((..((((((..((((.....))))))))))))))))))).)))))))))).......(((((((.............))))))) (-44.76 = -44.82 +   0.06)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 13,668,877 – 13,668,981
Length 104
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.92
Mean single sequence MFE -37.79
Consensus MFE -33.85
Energy contribution -34.36
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.90
SVM decision value 1.12
SVM RNA-class probability 0.918410
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13668877 104 - 23771897
CCCAGUCA--------CACAGACUGGGGGAGGGCGUGACAACAAUGCAGAAUCUUGUGUCGAGUCAAUUACCCAGGACACAUUAGAUCCUGCGUGCCGUUGCCACUCGAGAG--------
(((((((.--------....))))))).((((((..(((....((((((.((((((((((...............))))))..)))).))))))...)))))).))).....-------- ( -39.66)
>DroSec_CAF1 76270 104 - 1
CCCAGUCA--------CACAGACUGGGGGAGGGCGUGACAACAAUGCAGAAUCUUGUGUCGAGUCAAUUACCCAGGACACAUUAGAUCCUGCGUGCCGUUGCCACUCGAGAG--------
(((((((.--------....))))))).((((((..(((....((((((.((((((((((...............))))))..)))).))))))...)))))).))).....-------- ( -39.66)
>DroEre_CAF1 81435 112 - 1
CCCAGUCA--------CACAGACCGGGGAAGGGCGUGACAACAAUGCAGAAUCUUGUGUCGAGUCAAUUACCCAGGACACAUUAGAUCCUGCGUGCCGUUGCCACUCGAGAGUCGGUAGU
(((.(((.--------....))).)))....(((((....)).((((((.((((((((((...............))))))..)))).))))))))).((((((((....))).))))). ( -36.66)
>DroYak_CAF1 84697 112 - 1
ACCAGUCACAUAGUCACAUAGACUGGGGAAGGGCGUGACAACAAUGCAGAAUCUUGUGUCGAGUCAAUUACCCAGGACACAUUAGAUCCUGCGUGCCGUUGCCACUCGAGAG--------
.((((((.............))))))((((.(((((....)).((((((.((((((((((...............))))))..)))).))))))))).)).)).........-------- ( -35.18)
>consensus
CCCAGUCA________CACAGACUGGGGAAGGGCGUGACAACAAUGCAGAAUCUUGUGUCGAGUCAAUUACCCAGGACACAUUAGAUCCUGCGUGCCGUUGCCACUCGAGAG________
(((((((.............))))))).....(.(((.((((.((((((.((((((((((...............))))))..)))).))))))...)))).))).)............. (-33.85 = -34.36 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:52 2006